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News 2014


AGU Fall Meeting. San Francisco

The Biomet Lab was well represented at the AGU meeting

B32B-05 Update on Fluxnet and the Role of Flux Networks in Biogeosciences. Baldocchi, Agarwal, Papale, Torn

U43A-03 Long Term Eddy Covariance Networks – When Collaboration Works: An Example from Ameriflux, ICOS and Fluxnet. Papale, Baldocchi, Loescher, Torn

B41D-0082 Annual Greenhouse Gas (CO2, CH4, and N2O) Fluxes Via Ebullition from a Temperate Emergent Wetland. McNichol, Sturtevant, Knox, Baldocchi, Silver

B21F-0111 Soil Greenhouse Gas Flux Measurements with Automated and Manual Static Chambers, Forced Diffusion Chamber, and Concentration Profiles. Ruan, Sturtevant, Oikawa, Knox, Baldocchi, Silver

B11D-0046 Combining Microbial Enzyme Kinetics Models with Light Use Efficiency Models to Predict CO2 Ecosystem Exchange from Flooded and Drained Peatland Systems. Oikawa, Jenerette, Sturtevant, Knox, Baldocchi

B53A-0169 Phenology and gross primary production of open oak savanna and annual grassland under the Mediterranean climate in California. Wang…Ma, Baldocchi

B14D-08 Warm Spring Reduced Impact of Summer Drought on Carbon Cycling. Wolf, Keenan, Fisher, Baldocchi

B31I-04 Using Wavelets and Information Theory to Characterize the Direction, Strength, and Time Scale of Interaction between Environmental Drivers and Greenhouse Gas Exchange in Managed Wetlands of Northern California. Sturtevant, Ruddell, Mathes, Oikawa, Knox, Verfaillie, Baldocchi

B51K-08 Fluxes in the Sacramento-San Joaquin Delta, California: Findings from a Regional Network of Eddy Covariance Towers. Knox, Mathes, Sturtevant, Koteen, Oikawa, Verfaillie, Baldocchi

B41K-0207 Evaluation of Growing Season Milestones, Using Eddy Covariance Time-Series of Net Ecosystem Exchange. Fabayshenko;Baldocchi

A44E-02 Shallow cumulus rooted in photosynthesis. Vila…Baldocchi

Staff News

We had our annual Biomet Lab Lunch in SF.  Attendance was near a peak including current (Sara Knox, Sebastian Wolf, Siyan Ma, Patty Oikawa, Cove Sturtevant, Sam Pennypacker) and alumni (Hideki Kobayashi, Nancy Kiang, Youngryel Ryu, Mathias Falk, Jessica Osuna, Matteo Detto, Xingyuan Chen, Josh Fisher, Liukang Xu, Lianhong Gu, Martin Beland) and long term lab visitors (Joon Kim, Jordi Vila, Markus Reichstein, Dario Papale).

agu2014 biometlab.JPG 


Sebastian Wolf is ending his 3 year tenure in the Biomet lab as a ETH and Madame Curie Postdoctoral Fellow. He is returning back to Switzerland to finish his postdoc.


We had visitors before the AGU meeting from Argentina. Sylvain Kuppel and Javier Houspanoussian. They spoke on Biophysical effects of deforestation, floods, and farming management shifts on climate: Insights from the plains of Southern South America".


ddb attended the 7th California Oak Symposium in Visalia and spoke on Climate Change and Oaks


Osuna, Baldocchi, Kobayashi, Dawson,"Seasonal Trends in Photosynthesis and Electron Transport During the Mediterranean Summer Drought", Tree Physiology. submitted


Sara Knox, Cove Sturtevant and Patty Oikawa are attending the Bay Delta Science Conference in Sacramento.

Sara is speaking on Interannual Variation in CO2 and CH4 Fluxes from a Rice Paddy in the Sacramento‐San Joaquin Delta, California.

Cove is speaking on Exploring the Complex Couplings between Environmental Drivers and Greenhouse Gas Exchange in Restored Delta Wetlands

ddb attended the DOE BERAC meeting in Rockville, MD


A short public education/outreach note on trends in tule fog was produced by the Yale Climate Connection. Climate Connections consists of 90-second stories about how people are responding to our warming world.



Vierling et al. Spectral metabolics:  Emerging findings, methodologies, and implications of estimating canopy gas exchange using remote sensing. submitted to New Phytologist, Tansley Review

Baldocchi, D.D. Sturtevant, C. How Day and Night Sampling Minimizes Autocorrelation between Canopy Photosynthesis and Ecosystem Respiration. submitted to Agricultural and Forest Meteorology



Several visitors giving seminars in EPS and CEE came to the Biomet Lab to visit

Gretchen Miller, Texas AM

Charlie Harvey, MIT

Dan Richter, Duke


Patty Oikawa attended the Autumn School on Data Assimilation in Biogeochemical Cycles 22-27 Sept 2014, ICTP, Trieste, Italy

ddb gave a talk on Bridging soil physics and ecosystem ecology towards better understanding soil trace gas efflux. Complex Soil Systems Conference. A Path to Improved Understanding of Complex Soil Systems. Berkeley, California. Sept 3-5, 2014.


Knox, S. H., C. Sturtevant, J. H. Matthes, L. Koteen, J. Verfaillie, and D. Baldocchi. 2014. Agricultural peatland restoration: effects of land-use change on greenhouse gas (CO2 and CH4) fluxes in the Sacramento-San Joaquin Delta. Global Change Biology doi: 10.1111/gcb.12745


Reichstein, M., M. Bahn, M. D. Mahecha, J. Kattge, and D. D. Baldocchi. 2014. Linking plant and ecosystem functional biogeography. Proceedings of the National Academy of Sciences. doi: 10.1073/pnas.1216065111.  published on line


Staff News

The wetland research made the front of the ESPM web page. Check it out as Cove Sturtevant put together an exciting movie of the growing tules as the restored wetland developes.  We hope Cove can submit his Movie to the Sundance Festival and it wins an Academy Award next year.



Sara Knox is attending the annual meeting of the Ecological Society of America in Sacramento and is presenting a talk on 'Greenhouse gas emissions and carbon sequestration potential in restored freshwater marshes in the Sacramento San-Joaquin Delta, California'

ddb attended the AsiaFlux meeting at the International Rice Research Institute, Los Banos, Philippines. He gave presentations on greenhouse gas flux measurements in the delta and a report on the status of FLUXNET



Funding arrived for the DOE project 'Connecting AmeriFlux to the Globe, Extending the Partnership with the Global Flux Network, FLUXNET'. The project is a partnership with Margaret Torn, Deb Agarwal, Marty Humphrey and a formal collaboration with Dario Papale and Markus Reichstein, ICOS, OzFlux, AmeriFlux, AsiaFlux, ChinaFlux and LBA.


Knox et al Agricultural peatland restoration: effects of land-use change on greenhouse gas (CO2 and CH4) fluxes in the Sacramento-San Joaquin Delta has been accepted with minor revision by Global Change Biology.


Staff News

Eric Waller is now Dr. Waller, Ph.D.  Eric submitted his dissertation onComplexity of Climate Controls on Plant Species Distributions. Congratulations.


Sebastian Wolf attended the GEWEX meeting in the Netherlands and presented a poster on Global Patterns of Biosphere-Atmosphere Energy Fluxes in Terrestrial Ecosystems.  He won an award at the meeting for his poster. Congratulations

ddb returned from a visit at the Czech Globe, the global change research centre of the Czech Academy of Science.  He gave presentations on FLUXNET and leaf to canopy scaling, discussed science with the team and visited various field sites across the Czech republic including Bily Kriz, a new temperate forest site in a flood plain and the new 250 m ICOS tower.

ddb gave the 2014 Karlsruhe Institute of Technology Environment lecture in Garmisch Partenkirchen on 'I've looked at plants from both sides now; ecosystem-atmosphere interactions'.  The next day he  participated in a Spitzenforscherwerkstatt (Environmental Research Summit) discussing science careers with 30 young scientists.


Xiao, J., S. V. Ollinger, S. Frolking, G. C. Hurtt, D. Y. Hollinger, K. J. Davis, Y. Pan, X. Zhang, F. Deng, J. Chen, D. D. Baldocchi, B. E. Law, M. A. Arain, A. R. Desai, A. D. Richardson, G. Sun, B. Amiro, H. Margolis, L. Gu, R. L. Scott, P. D. Blanken, and A. E. Suyker. 2014. Data-driven diagnostics of terrestrial carbon dynamics over North America. Agricultural and Forest Meteorology 197:142-157.


Matthes, J. H., C. Sturtevant, J. Verfaillie, S. Knox, and D. Baldocchi. 2014. Parsing the variability in CH4 flux at a spatially heterogeneous wetland: Integrating multiple eddy covariance towers with high-resolution flux footprint analysis. Journal of Geophysical Research: Biogeosciences:2014JG002642.



Our fog paper was a Nature Research Highlight


The Biomet Lab is conducting some text experiments of soil respiration with Picarro at Sherman Island using auto chambers, Forced Diffusion Chambers and Flux gradient measurements


Patty Oikawa and ddb attended the 9th Air Pollution and Global Change Symposium at Asilomar.  Patty presented a poster on Improving process based modeling of CO2 and CH4 from managed peatland systems. ddb gave a presentation on Assessing the impacts of agricultural management and ecological restoration on greenhouse gas fluxes to and from temperate peatlands.


Baldocchi, D. (2014), Measuring Fluxes of Trace Gases and Energy between Ecosystems and the Atmosphere—the State and Future of the Eddy Covariance Method, Global Change Biology, 10.1111/gcb.12649.  published on line.



Staff News

The Biomet Lab had its annual summer party at the Beach (a subset of hardy beach walkers + a guy from Stanford).  

We also said Farewell to Martin Beland, who is moving on to a faculty position at Laval University in Quebec City.



Sara Knox, Sebastian Wolf and ddb attended the DOE AmeriFlux and Terrestrial Ecosystem Science meetings at Potomac, MD. Sara won a travel scholarship to attend the meeting and Sebastian gave a talk on his drought synthesis work.

Numerous Biomet alumni were in attendance at the meetings, including Lianhong Gu, Liukang Xu, Jianwu Tang, Josh Fisher, Xingyuan Chen, Jessica Cruz and Emily Gilson.

Sebastian Wolf and ddb attended the 31st Conference on Agricultural and Forest Meteorology in Portland, OR.  Sebastian gave a talk on this drought synthesis.  


ddb gave a talk at the Ray Leuning Symposium, Faced with Biometeorological Problems, What would Ray Do?.


Cove Sturtevant gave a presentation on Exploring the time scales of interaction between environmental drives adn greenhouse gas exchange in peatland ecosystems at the Joint Aquatics Science Meeting in Portland.



The Biomet lab hosted a number of State agency representatives (Dept Water Resources, Legislative Analyst Office, Dept Fish and Game, Air Resources Board) on a tour of the Delta greenhouse gas flux measurement network. May 1, 2014


Baldocchi, D., and E. Waller (2014), Winter fog is decreasing in the fruit growing region of the Central Valley of California, Geophys. Res. Lett., 2014GL060018. published on-line

 Coverage of the work is posted on










Koteen, L. E., N. Raz-Yaseef, and D. D. Baldocchi (2014), Spatial heterogeneity of fine root biomass and soil carbon in a California oak savanna illuminates plant functional strategy across periods of high and low resource supply, Ecohydrology, DOI: 10.1002/eco.1508


Toomey, Michael, Friedl, M., Frolking, S., Hufkens, K., Klosterman, S., Sonnentag, O., Baldocchi, D.D., Bernacchi, C.J., Bohrer, G., Brzostek, E., Burns, S.P., Coursolle, C., Hollinger, D.Y., Margolis, H.A., McCaughey, H.,  Monson, R.K., Munger, J.W., Pallardy, S., Phillips, R.P., Torn, M., Wharton, S., Zeri, M., Richardson, A.D.. 2014. Greenness indices from digital cameras predict the timing and seasonal dynamics of canopy-scale photosynthesis. Ecological Applications. Accepted.

Mathes Hatala, J., Sturtevant, C., O’Connell, J., Byrd, K., Verfaillie, J., Knox, S., Baldocchi, D., 2014. Parsing variability in CH4 fluxes at a spatially heterogeneous wetland: Integrating multiple eddy covariance towers with high-resolution flux footprint analysis Journal of Geophysical Research - Biogeosciences. 2014JG002642R. accepted


Martin Beland posted a new LIDAR image of a giant sequoia.  It is a really great 3D image of an iconic 86 m tree. Take a watch and help make it go viral


Staff News

Joe Verfaillie won the ESPM photo contest with a great shot of our rice paddy at our Delta Field site on Twitchell Island


Madeleine Geli from ENSTA-ParisTech in France joined the Biometeorology lab as a summer intern.

Eric Waller walked through Graduation. Congratulations.


Michael Schaepman from the University of Zurich visited and gave an interesting seminar on 3D reconstruction and validation of forests systems. Prof. Schaepman and his team are using LIDAR to build virtual forests from the shoot to landscape scales.


ddb attended International Symposium on Evapotranspiration: Challenges in Measurement and Modeling from Leaf to the Landscape Scale and Beyond, in Rayleigh, NC and gave a Keynote lecture on Evaluating Evaporation Everywhere, All of the Time: Lessons Learned about Ecosystem Evaporation from Long Term Global Flux networks

Exploring Methane and Carbon Dioxide Exchange from Agricultural and Wetland Land Use in the Sacramento-San Joaquin Delta. Delta Stewardship Council Brown Bag Seminar, April 29, 2014, Sacramento, CA



DOE informed us that they are recommending that the FLUXNET proposal to the ROSES competition on Connecting AmeriFlux to the Globe, Extending the Partnership with the Global Flux Network, FLUXNET will be funded.


Baldocchi, D. (2014), Biogeochemistry: Managing land and climate, Nature Clim. Change, 4(5), 330-331.


Winter Fog is Decreasing in the Fruit Growing Region of the Central Valley of California" (2014GL060018R) by D.D. Baldocchi and E. Waller is accepted for publication in Geophysical Research Letters


Measuring Fluxes of Trace Gases and Energy between Ecosystems and the Atmosphere—the State and Future of the Eddy Covariance Method" submitted to Global Change Biology



Tom O'Halloran from Sweet Briar College visited and discussed using fluxnet data to assess the role of diffuse light on carbon fluxes

We hosted Andrew Oliphant and his Bioclimatology class at San Francisco State on a tour of the Delta Field sites



A guide on how to write better papers for JGR Biogeosciences has been posted on the publication web site.  Please refer to



Monson, R and Baldocchi, D. 2014. Terrestrial Biosphere-Atmosphere Fluxes. Cambridge University Press



Vila-Guerau de Arellano, Jordi, Ouwersloot, H. G.,Baldocchi, D.D, Jacobs, C. 2014. Shallow cumulus rooted in photosynthesis. Geophysical Research Letters. Doi:10.1002/2014GL059279



Oikawa, P.Y. ,D. A. Grantz, A. Chatterjee, J. E. Eberwein, L. A. Allsman and G. D. Jenerette. Unifying soil respiration pulses, inhibition, and temperature hysteresis through dynamics of labile soil carbon and O2 J ournal of Geophysical Research, Biogeosciences, DOI: 10.1002/2013JG002434


Trevor Keenan, from Maquarie University in Australia visited the Biomet Lab, before his interview at Cal for the Ecoinformatics position

Alan Robock, from Rutgers, visited before his BASC seminar on Climate and Regional Nuclear war. We discussed roles of volcanos on diffuse light, carbon cycle and climate, geoengineering and soil moisture networks. We had the treat of having lunch with Alan, and with Daniel Ellsberg of the Pentagon Papers fame.

Rodrigo Vargas, former postdoc and now asst prof at Delaware, visited with his new son, Diego, and spouse, Angie

Liukang Xu, former postdoc and now research scientist at LICOR, visited with his colleague Jason. We discussed instrumentation and flux measurements


Sturtevant, Ma, Verfaillie and Baldocchi attended the AmeriFlux Data Manager's Workshop at Lawrence Berkeley National Lab. It was a great opportunity to meet other collaborators across the network and to update our site metadata and stand information

Martin Beland and Dennis Baldocchi attended the International Conference on Global Vegetation Monitoring and Modeling in Avignon. Martin presented a poster on Foliage clumping and the role of Terrestrial LIDAR in its characterization.

DDB chaired the session on Site Measurements, Scaling, modelign and remote sensing.

Former Biometter, Youngryel Ryu, gave a keynote lecture on his work



Beland, M., J. L. Widlowski, and R. A. Fournier (2014), A model for deriving voxel-level tree leaf area density estimates from ground-based LiDAR, Environmental Modelling & Software, 51, 184-189.

Vila-Guerau de Arellano, Jordi, Ouwersloot, H. G., Baldocchi, D.D, Jacobs, C. 2014. Shallow cumulus rooted in photosynthesis. Geophysical Research Letters in press


Jaclyn Hatala MatthesCove Sturtevant, Joseph Verfaillie, Sara Knox, and Dennis Baldocchi. Parsing variability in CH4 fluxes at a spatially heterogeneous wetland: Integrating multiple eddy covariance towers with high-resolution flux footprint analysis.  submitted to Journal of Geophysical Research, Biogeosciences

Staff News

Martin Beland accepted a faculty position at the University of Laval in Canada. He will start his position in the fall. Congratulations


‘Winter Fog is Decreasing in the Fruit Growing Region of the Central Valley of California submitted to Geophysical Research Letters, by D. Baldocchi and Eric Waller

On linking plant and ecosystem functional biogeography by M Reichstein, M Bahn, MD Mahecha, J Kattge and DD Baldocchi, Proceedings of the National Academy of Science, in press


Staff News

Laurie Koteen has moved on to being Ecological Science Academic Coordinator at the UC Agricultural and Natural Resources unit. She will be involved with managing a network of flux towers being installed at a suite of the agricultural experiment stations across the state. 



  This material is based upon work supported by the National Science Foundation and US Department of Energy. Any opinions, findings, conclusions, or recommendations expressed in the material are those of the author(s) and do not necessarily reflect the views of the supporters.